Table 1.
Map and model information for VPAC1R-PACAP27, VPAC1R-VIP and PAC1R-PACAP27 datasets
| VPAC1R-VIP-Gs | VPAC1R-PACAP27-Gs | PAC1R-PACAP27-Gs | |
|---|---|---|---|
| Data collection/processing | |||
| Magnification | 105 000x | 130 000x | 105 000x |
| Voltage (kV) | 300 | 300 | 300 |
| Spot size | 4 | 7 | 5 |
| Total electron dose (e−/Å2) | 64.9 (set1) 47 (set2)* | 69.7 | 52.4 |
| Exposure time (s) | 3.196 | 6.00 | 5.01 |
| Energy filter slit width (eV) | 25 | 15 | 25 |
| Movie frames | 80 | 85 | 71 |
| Dose rate (e-/Å2/s) | 20.3 (set1) 14.7 (set2)* | 11.62 | 10.45 |
| Movies collected | 1134 (set1) 4329 (set2)* | 6745 | 5850 |
| K3 CDS mode | No | Yes | Yes |
| Defocus range (μm) | −0.5 to −1.4 | −0.5 to −1.4 | −0.5 to −1.4 |
| Pixel size (Å) | 0.83 | 0.65 | 0.83 |
| Final particle number | 375 164 | 334 267 | 440 740 |
| Relion maps (post-processed) | |||
| Resolution (Å) | 2.7 (a), 2.9 (b), 3.0 (c) | 2.3 (a), 2.4 (b), 2.5 (c) | 2.3 (a), 2.4 (b), 2.5 (c) |
| Map sharpening B-factor (Å2) | −60 (auto), −20 (man) | −69 (auto), −25 (man) | −96 (auto), −25 (man) |
| Map vs Model (Phenix Validation) | 0.77 | 0.85 | 0.82 |
| Cryosparc maps | |||
| Resolution (Å) | 2.8 | 2.4 | 2.4 |
| Validation molprobity | |||
| MolProbity score (percentile) | 1.45 (96th) | 1.31 (98th) | 1.35 (98th) |
| Clashscore (percentile) | 7.18 (86th) | 5.72 (91th) | 5.78 (91th) |
| Poor rotamers (%) | 0.11% | 0.11% | 0% |
| Ramachandran plot | |||
| Favoured (%) | 97.75 | 98.04 | 97.86 |
| Outliers (%) | 0 | 0 | 0 |
| Cβ deviations (%) | 0 | 0 | 0 |
| Bonds | |||
| Bond length (Å), bad bonds (%) | 0.003, 0% | 0.003, 0% | 0.003, 0% |
| Bond angles (°), bad angles (%) | 0.588, 0.02% | 0.599, 0.02% | 0.582, 0.06% |
Changed imaging conditions during data collection of VPAC1R-VIP dataset (labelled as set1/set2, indicated by asterisk*. Initially processes separately, then re-joined refined particles. (a) Resolution (Å) of consensus map excluding micelle/AHD/ECD (tight mask). (b) Resolution (Å) of consensus map including micelle (wide mask). (c) Resolution (Å) of receptor-focused cryo-EM map. (auto) Auto-B-factor of high-resolution map (water molecules visible) (deposited as additional map). (man) Manual B-factor of consensus map.